A MLVA genotyping scheme for global surveillance of the citrus pathogen Xanthomonas citri pv. citri suggests a worldwide geographical expansion of a single genetic lineage
1UMR PVBMT - Peuplements végétaux et bioagresseurs en milieu tropical (Faculté des Sciences et techniques - Université de La Réunion 15 avenue René Cassin CS92003 97744 Saint-Denis Cédex 9 pour le Cirad Station de Ligne-Paradis - 7 chemin de l'IRAT - 97410 Saint-Pierre - Réunion)
Abstract : MultiLocus Variable number of tandem repeat Analysis (MLVA) has been extensively used to examine epidemiological and evolutionary issues on monomorphic human pathogenic bacteria, but not on bacterial plant pathogens of agricultural importance albeit such tools would improve our understanding of their epidemiology, as well as of the history of epidemics on a global scale. Xanthomonas citri pv. citri is a quarantine organism in several countries and a major threat for the citrus industry worldwide. We screened the genomes of Xanthomonas citri pv. citri strain IAPAR 306 and of phylogenetically related xanthomonads for tandem repeats. From these in silico data, an optimized MLVA scheme was developed to assess the global diversity of this monomorphic bacterium. Thirty-one minisatellite loci (MLVA-31) were selected to assess the genetic structure of 129 strains representative of the worldwide pathological and genetic diversity of X. citri pv. citri. Based on Discriminant Analysis of Principal Components (DAPC), four pathotype-specific clusters were defined. DAPC cluster 1 comprised strains that were implicated in the major geographical expansion of X. citri pv. citri during the 20th century. A subset of 12 loci (MLVA-12) resolved 89% of the total diversity and matched the genetic structure revealed by MLVA-31. MLVA-12 is proposed for routine epidemiological identification of X. citri pv. citri, whereas MLVA-31 is proposed for phylogenetic and population genetics studies. MLVA-31 represents an opportunity for international X. citri pv. citri genotyping and data sharing. The MLVA-31 data generated in this study was deposited in the Xanthomonas citri genotyping database (http://www.biopred.net/MLVA/).
https://hal.univ-reunion.fr/hal-01456735 Contributor : Réunion UnivConnect in order to contact the contributor Submitted on : Tuesday, May 25, 2021 - 11:47:45 AM Last modification on : Tuesday, August 2, 2022 - 3:46:25 AM Long-term archiving on: : Thursday, August 26, 2021 - 7:04:22 PM
Olivier Pruvost, Maxime Magne, Karine Boyer, Alice Leduc, Christophe Tourterel, et al.. A MLVA genotyping scheme for global surveillance of the citrus pathogen Xanthomonas citri pv. citri suggests a worldwide geographical expansion of a single genetic lineage. PLoS ONE, Public Library of Science, 2014, 9 (6), pp.e98129. ⟨10.1371/journal.pone.0098129⟩. ⟨hal-01456735⟩